[Codon Bias Analysis in the Coding Genes of Structural and Accessory Proteins of Middle East Respiratory Syndrome Coronavirus].
Identifieur interne : 001E92 ( Ncbi/Checkpoint ); précédent : 001E91; suivant : 001E93[Codon Bias Analysis in the Coding Genes of Structural and Accessory Proteins of Middle East Respiratory Syndrome Coronavirus].
Auteurs : Jianlan Zhao ; Shasha Hu ; Hong Luo ; Qi Wu ; Huipeng YaoSource :
- Bing du xue bao = Chinese journal of virology [ 1000-8721 ] ; 2016.
Descripteurs français
- KwdFr :
- Codon (génétique), Codon (métabolisme), Coronavirus du syndrome respiratoire du Moyen-Orient (génétique), Coronavirus du syndrome respiratoire du Moyen-Orient (métabolisme), Génome viral, Humains, Infections à coronavirus (virologie), Protéines virales régulatrices ou accessoires (génétique), Protéines virales régulatrices ou accessoires (métabolisme), Protéines virales structurales (génétique), Protéines virales structurales (métabolisme), Évolution moléculaire.
- MESH :
- génétique : Codon, Coronavirus du syndrome respiratoire du Moyen-Orient, Protéines virales régulatrices ou accessoires, Protéines virales structurales.
- métabolisme : Codon, Coronavirus du syndrome respiratoire du Moyen-Orient, Protéines virales régulatrices ou accessoires, Protéines virales structurales.
- virologie : Infections à coronavirus.
- Génome viral, Humains, Évolution moléculaire.
English descriptors
- KwdEn :
- Codon (genetics), Codon (metabolism), Coronavirus Infections (virology), Evolution, Molecular, Genome, Viral, Humans, Middle East Respiratory Syndrome Coronavirus (genetics), Middle East Respiratory Syndrome Coronavirus (metabolism), Viral Regulatory and Accessory Proteins (genetics), Viral Regulatory and Accessory Proteins (metabolism), Viral Structural Proteins (genetics), Viral Structural Proteins (metabolism).
- MESH :
- chemical , genetics : Codon, Viral Regulatory and Accessory Proteins, Viral Structural Proteins.
- chemical , metabolism : Codon, Viral Regulatory and Accessory Proteins, Viral Structural Proteins.
- genetics : Middle East Respiratory Syndrome Coronavirus.
- metabolism : Middle East Respiratory Syndrome Coronavirus.
- virology : Coronavirus Infections.
- Evolution, Molecular, Genome, Viral, Humans.
Abstract
Middle East respiratory syndrome coronavirus (MERS-Co V) is a RNA virus causing serious harm to people. In order to investigate the codon usage characteristics and influence factors, codon preference and multivariate statistical analysis of MERS-Co V 9 gene sequences were performed by using Codon W, CUSP and SPSS software, getting the content of GC at three positions of codons, ENC (Effective number of codon)and RSCU(Relative synonymous codon usage)of all genes. In addition, the results were compared with Escherichia coli, yeast and human’s codon usage frequency. The results showed that GC3 content is significantly lower than GC1 and GC2content,and less than 50%.It indicates that the third position of codons prefers to A or T.ENC value is 50.59,which implies codon usage bias is a little slight in MERS-Co V genome. According to the neutral drawing analysis and ENC-plot analysis, codon bias is mainly affected by selection pressure in the MERS-Co V genome. It is found that codon usage frequency of MERS-Co V is more close to yeast, compared with other three kinds of biological codon usage frequency.Finally,19 codons are defined as the major preference codons in MERS-Co V. The results have a certain significance for MERS-Co V that selecting gene expression host system, contributing further to development of genetically engineered vaccine and therapeutic antibody.
PubMed: 29979536
Affiliations:
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pubmed:29979536Le document en format XML
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first="Shasha" last="Hu">Shasha Hu</name></author><author><name sortKey="Luo, Hong" sort="Luo, Hong" uniqKey="Luo H" first="Hong" last="Luo">Hong Luo</name></author><author><name sortKey="Wu, Qi" sort="Wu, Qi" uniqKey="Wu Q" first="Qi" last="Wu">Qi Wu</name></author><author><name sortKey="Yao, Huipeng" sort="Yao, Huipeng" uniqKey="Yao H" first="Huipeng" last="Yao">Huipeng Yao</name></author></analytic><series><title level="j">Bing du xue bao = Chinese journal of virology</title><idno type="ISSN">1000-8721</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Codon (genetics)</term><term>Codon (metabolism)</term><term>Coronavirus Infections (virology)</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Humans</term><term>Middle East Respiratory Syndrome Coronavirus (genetics)</term><term>Middle East Respiratory Syndrome Coronavirus (metabolism)</term><term>Viral Regulatory and Accessory Proteins (genetics)</term><term>Viral Regulatory and Accessory Proteins (metabolism)</term><term>Viral Structural Proteins (genetics)</term><term>Viral Structural Proteins (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Codon (génétique)</term><term>Codon (métabolisme)</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient (génétique)</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient (métabolisme)</term><term>Génome viral</term><term>Humains</term><term>Infections à coronavirus (virologie)</term><term>Protéines virales régulatrices ou accessoires (génétique)</term><term>Protéines virales régulatrices ou accessoires (métabolisme)</term><term>Protéines virales structurales (génétique)</term><term>Protéines virales structurales (métabolisme)</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Codon</term><term>Viral Regulatory and Accessory Proteins</term><term>Viral Structural Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Codon</term><term>Viral Regulatory and Accessory Proteins</term><term>Viral Structural Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Middle East Respiratory Syndrome Coronavirus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Codon</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient</term><term>Protéines virales régulatrices ou accessoires</term><term>Protéines virales structurales</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Middle East Respiratory Syndrome Coronavirus</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Codon</term><term>Coronavirus du syndrome respiratoire du Moyen-Orient</term><term>Protéines virales régulatrices ou accessoires</term><term>Protéines virales structurales</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Infections à coronavirus</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Humans</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Génome viral</term><term>Humains</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Middle East respiratory syndrome coronavirus (MERS-Co V) is a RNA virus causing serious harm to people. In order to investigate the codon usage characteristics and influence factors, codon preference and multivariate statistical analysis of MERS-Co V 9 gene sequences were performed by using Codon W, CUSP and SPSS software, getting the content of GC at three positions of codons, ENC (Effective number of codon)and RSCU(Relative synonymous codon usage)of all genes. In addition, the results were compared with Escherichia coli, yeast and human’s codon usage frequency. The results showed that GC3 content is significantly lower than GC1 and GC2content,and less than 50%.It indicates that the third position of codons prefers to A or T.ENC value is 50.59,which implies codon usage bias is a little slight in MERS-Co V genome. According to the neutral drawing analysis and ENC-plot analysis, codon bias is mainly affected by selection pressure in the MERS-Co V genome. It is found that codon usage frequency of MERS-Co V is more close to yeast, compared with other three kinds of biological codon usage frequency.Finally,19 codons are defined as the major preference codons in MERS-Co V. The results have a certain significance for MERS-Co V that selecting gene expression host system, contributing further to development of genetically engineered vaccine and therapeutic antibody.</div></front></TEI><affiliations><list></list><tree><noCountry><name sortKey="Hu, Shasha" sort="Hu, Shasha" uniqKey="Hu S" first="Shasha" last="Hu">Shasha Hu</name><name sortKey="Luo, Hong" sort="Luo, Hong" uniqKey="Luo H" first="Hong" last="Luo">Hong Luo</name><name sortKey="Wu, Qi" sort="Wu, Qi" uniqKey="Wu Q" first="Qi" last="Wu">Qi Wu</name><name sortKey="Yao, Huipeng" sort="Yao, Huipeng" uniqKey="Yao H" first="Huipeng" last="Yao">Huipeng Yao</name><name sortKey="Zhao, Jianlan" sort="Zhao, Jianlan" uniqKey="Zhao J" first="Jianlan" last="Zhao">Jianlan Zhao</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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